Table 2. Key Features of P. patens and Online Resources
CategoryFeature/Resource
LifestyleHaploid, gametophyte-dominant
Annual
Grows axenically in simple mineral medium
Self-fertile (predominantly selfing)
Stress-tolerant
Genetics and genomicsCan be crossed for genetic studies
Gene targeting by homologous recombination
Genome editing by CRISPR/Cas9
Transfection of protoplasts and Agrobacterium-mediated transformation
Complete genomes, relatively small nuclear genome (500 Mbp, 27 chromosomes)
Transcriptome (expression profiling) data
Many mutants published
Genomes and primary annotationNuclear genome assembly V3 for browsing at CoGe (including gene models v3.3, single nucleotide polymorphisms, RNA-seq expression evidence, TE and noncoding RNA annotation, microarray probes, DNA methylation, and histone modification)
https://genomevolution.org/coge/GenomeInfo.pl?gid=33928
Nuclear, plastid, and mitochondrial genomes at CoGe
https://genomevolution.org/coge/OrganismView.pl?gid=33928
Nuclear genome and gene models at Phytozome (including gene family assignment and RNA-seq expression evidence)
https://phytozome.jgi.doe.gov/pz/portal.html#!info?alias=Org_Ppatens
P. patens gene model lookup database (for converting between different annotation versions)
https://peatmoss.online.uni-marburg.de/ppatens_db/pp_search_input.php
Online toolsP. patens transcription factors and transcriptional regulators in TAPscan
https://plantcode.online.uni-marburg.de/tapscan/TAPs_for_species.php?species=Physcomitrella%20patens&id=98
P. patens expression atlas PEATmoss (including microarray and RNA-seq dataset)
https://peatmoss.online.uni-marburg.de/expression_viewer/input
Older expression atlas tools include Genevestigator (https://genevestigator.com/gv/) and an eFP browser (http://www.bar.utoronto.ca/efp_physcomitrella/cgi-bin/efpWeb.cgi)
P. patens in the PLAZA comparative genomics environment
https://bioinformatics.psb.ugent.be/plaza/versions/plaza_v4_dicots/organism/view/Physcomitrella+patens
https://bioinformatics.psb.ugent.be/plaza/versions/plaza_v4_monocots/organism/view/Physcomitrella+patens
P. patens in ENSEMBL plants
http://plants.ensembl.org/Physcomitrella_patens/Info/Index
Protocols and stocksCold Spring Harbor protocols on cultivation of P. patens
http://cshprotocols.cshlp.org/content/2009/2/pdb.prot5136.abstract
Protonema cultivation at Bio-protocol
https://bio-protocol.org/e1556
PHYSCObase protocols
http://moss.nibb.ac.jp/protocol.html
International Moss Stock Center
http://www.moss-stock-center.org/
Protocols on the Bezanilla Laboratory website
https://sites.dartmouth.edu/bezanillalab/moss-methods/